EP1632777A3 - Polysaccharide structure and sequence determination - Google Patents

Polysaccharide structure and sequence determination Download PDF

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Publication number
EP1632777A3
EP1632777A3 EP05023256A EP05023256A EP1632777A3 EP 1632777 A3 EP1632777 A3 EP 1632777A3 EP 05023256 A EP05023256 A EP 05023256A EP 05023256 A EP05023256 A EP 05023256A EP 1632777 A3 EP1632777 A3 EP 1632777A3
Authority
EP
European Patent Office
Prior art keywords
saccharide
markers
site
methods
sequence
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Withdrawn
Application number
EP05023256A
Other languages
German (de)
French (fr)
Other versions
EP1632777A2 (en
Inventor
Ofer Markman
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Procognia (Israel) Ltd
Original Assignee
Procognia (Israel) Ltd
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Procognia (Israel) Ltd filed Critical Procognia (Israel) Ltd
Publication of EP1632777A2 publication Critical patent/EP1632777A2/en
Publication of EP1632777A3 publication Critical patent/EP1632777A3/en
Withdrawn legal-status Critical Current

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Classifications

    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/66—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving blood sugars, e.g. galactose
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/34—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving hydrolase
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/53—Immunoassay; Biospecific binding assay; Materials therefor
    • G01N33/5308—Immunoassay; Biospecific binding assay; Materials therefor for analytes not provided for elsewhere, e.g. nucleic acids, uric acid, worms, mites
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2333/00—Assays involving biological materials from specific organisms or of a specific nature
    • G01N2333/415—Assays involving biological materials from specific organisms or of a specific nature from plants
    • G01N2333/42—Lectins, e.g. concanavalin, phytohaemagglutinin
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2333/00—Assays involving biological materials from specific organisms or of a specific nature
    • G01N2333/90—Enzymes; Proenzymes
    • G01N2333/914—Hydrolases (3)
    • G01N2333/924—Hydrolases (3) acting on glycosyl compounds (3.2)
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2400/00—Assays, e.g. immunoassays or enzyme assays, involving carbohydrates
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2400/00—Assays, e.g. immunoassays or enzyme assays, involving carbohydrates
    • G01N2400/02—Assays, e.g. immunoassays or enzyme assays, involving carbohydrates involving antibodies to sugar part of glycoproteins
    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N2400/00—Assays, e.g. immunoassays or enzyme assays, involving carbohydrates
    • G01N2400/10—Polysaccharides, i.e. having more than five saccharide radicals attached to each other by glycosidic linkages; Derivatives thereof, e.g. ethers, esters
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y10—TECHNICAL SUBJECTS COVERED BY FORMER USPC
    • Y10T—TECHNICAL SUBJECTS COVERED BY FORMER US CLASSIFICATION
    • Y10T436/00—Chemistry: analytical and immunological testing
    • Y10T436/14—Heterocyclic carbon compound [i.e., O, S, N, Se, Te, as only ring hetero atom]
    • Y10T436/142222—Hetero-O [e.g., ascorbic acid, etc.]
    • Y10T436/143333—Saccharide [e.g., DNA, etc.]

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  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Chemical & Material Sciences (AREA)
  • Molecular Biology (AREA)
  • Immunology (AREA)
  • Hematology (AREA)
  • Biomedical Technology (AREA)
  • Urology & Nephrology (AREA)
  • General Health & Medical Sciences (AREA)
  • Analytical Chemistry (AREA)
  • Microbiology (AREA)
  • Biotechnology (AREA)
  • Organic Chemistry (AREA)
  • Biochemistry (AREA)
  • Physics & Mathematics (AREA)
  • Food Science & Technology (AREA)
  • Medicinal Chemistry (AREA)
  • Zoology (AREA)
  • General Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Wood Science & Technology (AREA)
  • Cell Biology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Biophysics (AREA)
  • Diabetes (AREA)
  • Tropical Medicine & Parasitology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Investigating Or Analysing Biological Materials (AREA)
  • Polysaccharides And Polysaccharide Derivatives (AREA)
  • Saccharide Compounds (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
  • Medicines Containing Antibodies Or Antigens For Use As Internal Diagnostic Agents (AREA)

Abstract

A method for the structural analysis of a saccharide is disclosed, comprising: a) providing on a surface a plurality of essentially sequence- and/or site-specific binding agents; b) contacting said surface with a saccharide to be analyzed, or with a mixture comprising a plurality of fragments of said saccharide; c) washing or otherwise removing unbound saccharide or saccharide fragments; d) adding to the surface obtained in step c) an essentially sequence- and/or site-specific marker, or a mixture of essentially sequence- and/or site-specific markers; e) acquiring one or more images of the markers that are bound to said surface; and f) deriving information related to the identity of the saccharide being analyzed from said image. The invention further provides a solid support comprising in a pre-defined order a plurality of visual or otherwise detectable markers representative of a saccharide or saccharide sequence or fragment, as well as methods and software for choosing a set of essentially sequence-specific markers for use in the method of the invention, methods for obtaining structure-related data of saccharides, and methods and apparatus for analyzing the structure of a saccharide by sequential digestion using a glycosidase or an equivalent thereof.
EP05023256A 1999-05-06 2000-05-04 Polysaccharide structure and sequence determination Withdrawn EP1632777A3 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
IL129835A IL129835A (en) 1999-05-06 1999-05-06 Polysaccharide sequencing and structure determination
EP00922830A EP1179177B1 (en) 1999-05-06 2000-05-04 Polysaccharide structure and sequence determination

Related Parent Applications (1)

Application Number Title Priority Date Filing Date
EP00922830A Division EP1179177B1 (en) 1999-05-06 2000-05-04 Polysaccharide structure and sequence determination

Publications (2)

Publication Number Publication Date
EP1632777A2 EP1632777A2 (en) 2006-03-08
EP1632777A3 true EP1632777A3 (en) 2006-06-14

Family

ID=11072776

Family Applications (2)

Application Number Title Priority Date Filing Date
EP05023256A Withdrawn EP1632777A3 (en) 1999-05-06 2000-05-04 Polysaccharide structure and sequence determination
EP00922830A Expired - Lifetime EP1179177B1 (en) 1999-05-06 2000-05-04 Polysaccharide structure and sequence determination

Family Applications After (1)

Application Number Title Priority Date Filing Date
EP00922830A Expired - Lifetime EP1179177B1 (en) 1999-05-06 2000-05-04 Polysaccharide structure and sequence determination

Country Status (13)

Country Link
US (3) US7455979B2 (en)
EP (2) EP1632777A3 (en)
JP (2) JP4656731B2 (en)
AT (1) ATE308048T1 (en)
AU (1) AU779812B2 (en)
CA (1) CA2373119C (en)
DE (2) DE1179177T1 (en)
DK (1) DK1179177T3 (en)
ES (1) ES2254166T3 (en)
HK (1) HK1045727B (en)
IL (1) IL129835A (en)
NZ (1) NZ515375A (en)
WO (1) WO2000068688A1 (en)

Families Citing this family (19)

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Publication number Priority date Publication date Assignee Title
IL129835A (en) 1999-05-06 2008-03-20 Ofer Markman Polysaccharide sequencing and structure determination
US7399599B2 (en) 2000-07-10 2008-07-15 Vertex Pharmaceuticals (San Diego) Llc Ion channel assay methods
AU2599202A (en) * 2000-11-03 2002-05-15 Glycodata Ltd Methods for comparitive analysis of carbohydrate polymers and carbohydrate polymers identified using same
US7079955B2 (en) 2000-11-03 2006-07-18 Procognia, Ltd. System and method for integrated analysis of data for characterizing carbohydrate polymers
US7407773B2 (en) * 2000-11-03 2008-08-05 Procognia, Ltd. Method for characterizing a carbohydrate polymer
US20030104492A1 (en) * 2000-12-15 2003-06-05 Albert Chu Flow-through membrane assays for carbohydrates using labeled lectins
AU2002362903A1 (en) * 2001-10-16 2003-04-28 Procognia, Ltd. Method of preparing purified biologically active oligosaccharide libraries
WO2004036216A1 (en) * 2002-10-18 2004-04-29 Japan Science And Technology Agency Method of measuring interactions between sugar chains and sugar chain-binding protein and utilization thereof
EP1709443A2 (en) * 2003-12-18 2006-10-11 Procognia, Ltd. Method for analyzing a glycomolecule
US20070167608A1 (en) * 2003-12-25 2007-07-19 Jun Hirabayashi Sugar chain structure profiling techniques
WO2005064333A1 (en) 2003-12-25 2005-07-14 National Institute Of Advanced Industrial Science And Technology Method of analyzing interaction between protein and sugar chain
JP4565237B2 (en) 2005-06-23 2010-10-20 独立行政法人産業技術総合研究所 Sugar chain or complex carbohydrate analyzer
US8597576B2 (en) 2005-06-23 2013-12-03 National Institute Of Advanced Industrial Science And Technology Analyzer for glycan or complex carbohydrate
EP2287606A1 (en) 2006-07-11 2011-02-23 Procognia (Israel) Ltd. Method and assay for glycosylation pattern detection related to cell state
US20100266558A1 (en) * 2007-12-18 2010-10-21 Dov Zipori Method and assay for glycosylation pattern detection related to cell state of stem cells
WO2010099543A2 (en) * 2009-02-27 2010-09-02 Inter-Med, Inc. Compositions and methods for detecting oral neoplasm
US8962345B2 (en) 2010-05-21 2015-02-24 The United States Of America As Represented By The Secretary Of Commerce Method of characterizing glycans attached to glycoproteins
JP6360738B2 (en) * 2014-07-10 2018-07-18 学校法人 愛知医科大学 Method for determining the sequence structure of glycosaminoglycan sugar chains
CA3061176A1 (en) 2017-04-24 2018-11-01 University Of Georgia Research Foundation, Inc. Sialic acid binding polypeptide

Citations (2)

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EP0421972A2 (en) * 1989-10-03 1991-04-10 Oxford Glycosystems Ltd. Oligosaccharide sequencing

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EP0421972A2 (en) * 1989-10-03 1991-04-10 Oxford Glycosystems Ltd. Oligosaccharide sequencing

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Also Published As

Publication number Publication date
WO2000068688A1 (en) 2000-11-16
US7741061B2 (en) 2010-06-22
ES2254166T3 (en) 2006-06-16
JP4988889B2 (en) 2012-08-01
ATE308048T1 (en) 2005-11-15
HK1045727A1 (en) 2002-12-06
CA2373119C (en) 2011-07-19
IL129835A0 (en) 2000-02-29
NZ515375A (en) 2004-05-28
DE60023489D1 (en) 2005-12-01
EP1632777A2 (en) 2006-03-08
US20080200348A1 (en) 2008-08-21
US7455979B2 (en) 2008-11-25
US20060194269A1 (en) 2006-08-31
US20090148865A1 (en) 2009-06-11
JP2002544485A (en) 2002-12-24
AU4310700A (en) 2000-11-21
DE60023489T2 (en) 2006-07-27
JP4656731B2 (en) 2011-03-23
IL129835A (en) 2008-03-20
AU779812B2 (en) 2005-02-10
DK1179177T3 (en) 2006-07-17
EP1179177B1 (en) 2005-10-26
CA2373119A1 (en) 2000-11-16
JP2010181411A (en) 2010-08-19
HK1045727B (en) 2006-09-22
DE1179177T1 (en) 2003-11-27
EP1179177A1 (en) 2002-02-13

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